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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGACTGGCCGAATTTCTGTCAGTGATTATGTGAGAGTGACAAGCACAGAATGgtatattgaagaaattcactagctatcattttaaacaacaaattccccactattcaacgaagtacaatgatcaaattactcaaatcttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g59340.2
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59340.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G020002_T01 (Zea mays), 5'ss of exon 11
GAGACTGGCCGAATTTCTGTCAGTGATTATGTGAGAGTGACAAGCACAGAATGgta-tattgaagaaattcact--agcta----tcattttaaac---aacaaattccc-----------cactattcaac------------gaagtacaatgat-caaattactcaaatcttttcag
   ||||||   |||||||| |  || ||||| ||||||||||||||||||||||| |||  |  ||||   ||  | | |    | | |||| |    | || |||  |           || | ||||||             ||  |||||| | ||||||||||||   |||||||
---ACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAATGgtactatacattaaatctgctcaaaccagggtttagtttagaagtaaccagattgtcatatcaaaatgcattgttcaactagcaaaaaaaaaaaaaacaatggtacaaattactcaaccattttcag

upper sequence: LOC_Os01g59340.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G020002_T02 (Zea mays), 5'ss of exon 11
GAGACTGGCCGAATTTCTGTCAGTGATTATGTGAGAGTGACAAGCACAGAATGgta-tattgaagaaattcact--agcta----tcattttaaac---aacaaattccc-----------cactattcaac------------gaagtacaatgat-caaattactcaaatcttttcag
|||||||||   |||||||| |  || ||||| ||||||||||||||||||||||| |||  |  ||||   ||  | | |    | | |||| |    | || |||  |           || | ||||||             ||  |||||| | ||||||||||||   |||||||
GAGACTGGCAAGATTTCTGTAACCGACTATGTCAGAGTGACAAGCACAGAATGgtactatacattaaatctgctcaaaccagggtttagtttagaagtaaccagattgtcatatcaaaatgcattgttcaactagcaaaaaaaaaaaaaacaatggtacaaattactcaaccattttcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86873138|gb|CI328518.1|CI328518
EST:     GTCAGTGATTATGTGAGAGTGACAAGCACAGAATG                         TGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATTGCTGGAAGGAT
genomic: GTCAGTGATTATGTGAGAGTGACAAGCACAGAATGgtatattgaa ... atcttttcagTGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATT-CTGGAAGGAT
EST: gi|86431074|gb|CI083497.1|CI083497
EST:     TATGTGAGAGTGACAAGCACAGAATG                         TGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATTCTGGAAGGATC
genomic: TATGTGAGAGTGACAAGCACAGAATGgtatattgaa ... atcttttcagTGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATTCTGGAAGGATC
EST: gi|87026885|gb|CI259538.1|CI259538
EST:     ACTGGCCGAATTTCTGTCAGTGATTATGTGAGAGTGACAAGCACAGAATG                         TGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATTCTGGAAGGATC
genomic: ACTGGCCGAATTTCTGTCAGTGATTATGTGAGAGTGACAAGCACAGAATGgtatattgaa ... atcttttcagTGCCAAGATTTTCAACATATACCCTCGGAAAGGAGCAATTCTGGAAGGATC